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VexL: A periplasmic depolymerase provides new insight into ABC transporter-dependent secretion of bacterial capsular polysaccharides
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 1.58 M sodium malonate, 0.1 M BisTris HCl pH 6.5, 0.13 M ammonium citrate, and 2.5 % (v/v) 2-methyl-2,4-pentanediol
Crystal Properties Matthews coefficient Solvent content 2.05 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.68 α = 90 b = 94.68 β = 90 c = 78.84 γ = 90
Symmetry Space Group P 42 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M-F Toroidal mirror 2017-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.972422 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.22 60.6 100 17 12.8 106029
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.22 1.24 100 0.778 2.1 12.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.22 60.6 100829 5200 99.95 0.14038 0.13905 0.1392 0.16621 0.1661 RANDOM 19.66
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -1.16 -1.16 2.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.039 r_sphericity_free 22.198 r_dihedral_angle_4_deg 14.286 r_dihedral_angle_3_deg 11.64 r_sphericity_bonded 9.106 r_dihedral_angle_1_deg 6.921 r_long_range_B_refined 3.003 r_long_range_B_other 3.001 r_scangle_other 2.646 r_rigid_bond_restr 2.277
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.039 r_sphericity_free 22.198 r_dihedral_angle_4_deg 14.286 r_dihedral_angle_3_deg 11.64 r_sphericity_bonded 9.106 r_dihedral_angle_1_deg 6.921 r_long_range_B_refined 3.003 r_long_range_B_other 3.001 r_scangle_other 2.646 r_rigid_bond_restr 2.277 r_scbond_it 2.192 r_scbond_other 2.192 r_mcangle_it 2.004 r_mcangle_other 2.003 r_angle_refined_deg 1.561 r_mcbond_it 1.524 r_mcbond_other 1.519 r_angle_other_deg 0.991 r_chiral_restr 0.102 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2942 Nucleic Acid Atoms Solvent Atoms 243 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement autoPROC data scaling BALBES phasing XDS data reduction